Detailed information of TA system TA006112

Experimentally validated

Overview

TA module

• Type: II
• Classification (family/domain): vagCD/-
• Location: 160350..160993
• Replicon: plasmid pRSB225
• Accession: NC_025100
• Organism: uncultured bacterium

Toxin (Protein)

• Gene name: vagD
• Uniprot ID: -
• Locus tag: pRSB225_207
• Protein ID: YP_009066162.1
• Coordinates: 160350..160751 (-)
• Length: 134 a.a.

Antitoxin (Protein)

• Gene name: vagC
• Uniprot ID: -
• Locus tag: pRSB225_208
• Protein ID: YP_009066163.1
• Coordinates: 160763..160993 (-)
• Length: 77 a.a.

Genomic Context

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
pRSB225_204	155487..155888	-	402	YP_009066159.1	virulence associated protein D	-
pRSB225_205	155900..156298	-	399	YP_009066160.1	virulence associated protein C	-
pRSB225_206	156481..160305	+	3825	YP_009066161.1	hypothetical protein	-
pRSB225_207	160350..160751	-	402	YP_009066162.1	virulence associated protein D	Toxin
pRSB225_208	160763..160993	-	231	YP_009066163.1	virulence associated protein C	Antitoxin
pRSB225_209	161258..161758	+	501	YP_009066164.1	hypothetical protein	-
pRSB225_210	161771..162544	+	774	YP_009066165.1	hypothetical protein	-
pRSB225_211	162711..163844	+	1134	YP_009066166.1	hypothetical protein	-
pRSB225_212	163878..164390	-	513	YP_009066167.1	hypothetical protein	-

Associated MGEs

MGE detail	Similar MGEs	Relative position	MGE Type	Cargo ARG	Virulence gene	Coordinates	Length (bp)
	-	inside	Conjugative plasmid	aph(3')-Ia / aph(6)-Id / aph(3'')-Ib / sul2 / blaTEM-1B / mph(A) / dfrA14 / catA1 / tet(B) / sitABCD	iutA / iucD / iucC / iucB / iucA	1..164550	164550

Relative position:
(1) inside: TA loci is completely located inside the MGE;
(2) overlap: TA loci is partially overlapped with the MGE;
(3) flank: The TA loci is located in the 5 kb flanking regions of MGE.

Domains

Predicted by InterproScan

Toxin

• PIN domain (1-124)

Antitoxin

• SpoVT-AbrB domain (7-53)

Sequences

Toxin

Protein

• Length: 134 a.a.
• Molecular weight: 14360.57 Da
• Isoelectric Point: 6.2214

>T6112 YP_009066162.1 NC_025100:c160751-160350 [uncultured bacterium]
MLDTNICSFIMREQPEAVLKNLEQAVLRGHRIVVSAITYSEMRFGATGPKASPRHVQLVDAFCARLDAILPWDRAAVDAT
TEVKVALRLAGTPIGPNDTAIAGHAIATGAILVTNNVREFERVPGLVLEDWAG

Nucleotide

• Length: 402 bp

>T6112 NC_025100:c160751-160350 [uncultured bacterium]
ATGCTCGACACGAACATCTGCTCGTTCATCATGCGCGAGCAGCCTGAAGCAGTGCTTAAGAATCTGGAGCAGGCGGTGCT
GCGCGGTCACCGTATCGTGGTCTCGGCCATCACCTACTCCGAGATGCGCTTCGGCGCCACCGGTCCAAAGGCATCGCCAC
GCCACGTGCAGCTGGTTGACGCGTTCTGCGCCCGTCTCGATGCCATCCTGCCCTGGGATCGCGCTGCGGTGGATGCAACC
ACGGAGGTTAAGGTGGCGCTGCGCCTCGCCGGCACGCCGATCGGTCCAAACGACACGGCGATCGCCGGGCACGCCATCGC
CACCGGGGCAATACTGGTGACGAATAATGTGAGAGAGTTTGAGCGGGTGCCTGGACTGGTACTGGAAGACTGGGCAGGAT
AA

Antitoxin

Protein

• Length: 77 a.a.
• Molecular weight: 8853.07 Da
• Isoelectric Point: 4.6437

>AT6112 YP_009066163.1 NC_025100:c160993-160763 [uncultured bacterium]
MRTVSIFKNGNNRAIRLPRDLDFEGVSELEIVREGDRIILRPLRPSWSSFLELEKADPGFMTEREDVVCDEGRFNL

Nucleotide

• Length: 231 bp

>AT6112 NC_025100:c160993-160763 [uncultured bacterium]
ATGAGAACCGTATCTATTTTCAAAAATGGCAATAACCGCGCGATCCGTCTGCCCCGCGATCTGGATTTTGAGGGGGTGAG
TGAGCTGGAGATTGTACGGGAAGGGGACAGAATCATTCTGCGTCCCCTCCGCCCGAGCTGGAGCTCATTCCTGGAGCTAG
AAAAGGCCGATCCGGGCTTTATGACGGAACGCGAGGACGTTGTCTGCGACGAAGGACGATTTAACCTGTGA

Similar Proteins

Only experimentally validated proteins are listed.

Toxin

Protein	Organism	Identities (%)	Coverage (%)	Ha-value
T6111	uncultured bacterium	93.893	98.496	0.925
T10197	Klebsiella pneumoniae	90.84	98.496	0.895
T439	Salmonella enterica subsp. enterica serovar Typhimurium str. LT2	41.667	100	0.417
T4922	Actinobacillus pleuropneumoniae serovar 3 str. JL03	39.695	99.242	0.394
T3856	Dichelobacter nodosus VCS1703A	38.931	98.496	0.383
T3858	Dichelobacter nodosus VCS1703A	38.931	98.496	0.383
T10054	Bosea sp. PAMC 26642 strain PAMC26642	38.168	99.242	0.379
T1070	Haemophilus influenzae Rd KW20	36.641	99.242	0.364
T877	Sinorhizobium meliloti 1021	34.351	98.496	0.338
T10129	Haemophilus influenzae strain 69P2H1 N69P2H1_45_2	33.333	99.248	0.331
T1066	Haemophilus influenzae Rd KW20	32.576	99.248	0.323
T6113	Synechocystis sp. PCC 6803	28.873	100	0.308

Multiple sequence alignment

Antitoxin

Protein	Organism	Identities (%)	Coverage (%)	Ha-value
AT6111	uncultured bacterium	90.789	100	0.908
AT10197	Klebsiella pneumoniae	83.784	97.368	0.816
AT439	Salmonella enterica subsp. enterica serovar Typhimurium str. LT2	36.111	96	0.347
AT652	Leptospira interrogans serovar Lai str. 56601	35.616	96.053	0.342
AT1070	Haemophilus influenzae Rd KW20	37.313	88.158	0.329
AT10033	Thermus thermophilus HB27	30.07	100	0.323
AT3856	Dichelobacter nodosus VCS1703A	36.364	86.842	0.316
AT3858	Dichelobacter nodosus VCS1703A	36.364	86.842	0.316
AT4922	Actinobacillus pleuropneumoniae serovar 3 str. JL03	37.5	84.211	0.316
AT10054	Bosea sp. PAMC 26642 strain PAMC26642	31.507	96.053	0.303

Multiple sequence alignment

References

(1) Daniel Wibberg et al. (2013) The IncF plasmid pRSB225 isolated from a municipal wastewater treatment plant's on-site preflooder combining antibiotic resistance and putative virulence functions is highly related to virulence plasmids identified in pathogenic E. coli isolates. Plasmid 69(2):127-37. [PubMed:23212116]